Gene
Taestivum Traes 5AL D34627B1F
From GreeNC
This table contains information about coordinates, assembly and annotation regarding the lncRNA-transcribing gene. In details, it shows whether this this gene transcribes any protein-coding transcript.
| Gene alias / name | Chrom. | Start | End | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Taestivum_Traes_5AL_D34627B1F Traes_5AL_D34627B1F |
ta_iwgsc_5al_v1_2684329 | 5982 | 11264 | Phytozome | v2.2 | Triticum_aestivum | Coding? Yes |
This table shows how a lncRNA has been classified (high/low confidence) or whether it has been classified as pre-miRNA (go to FAQ for classification criteria). Besides, it displays the lncRNA length and sequence as well as information about the ORF, the coding potential calculated by the Coding Potential Calculator (CPC), and the folding energies calculated by RNAfold.
| Transcript alias / name | Confidence | Pre-miRNA | Length | Sequence | Details
|
|---|---|---|---|---|---|
| Taestivum_Traes_5AL_D34627B1F.1 Traes_5AL_D34627B1F.1 PAC:31864498 |
High | No | 796 | Get ORF Coding potential... Type: noncoding Potential: -0.103 Folding energies... MFEI: -27.349 AMFE: -0.631 GC content %: 43.342 | |
| Taestivum_Traes_5AL_D34627B1F.3 Traes_5AL_D34627B1F.3 PAC:31864501 |
High | No | 903 | Get ORF Coding potential... Type: noncoding Potential: -1.103 Folding energies... MFEI: -26.656 AMFE: -0.557 GC content %: 47.841 | |
| Taestivum_Traes_5AL_D34627B1F.4 Traes_5AL_D34627B1F.4 PAC:31864502 |
High | No | 883 | Get ORF Coding potential... Type: noncoding Potential: -0.246 Folding energies... MFEI: -28.392 AMFE: -0.651 GC content %: 43.601 | |
| Taestivum_Traes_5AL_D34627B1F.5 Traes_5AL_D34627B1F.5 PAC:31864500 |
Low | No | 1246 | Get ORF Coding potential... Type: noncoding Potential: -1.140 Folding energies... MFEI: -23.612 AMFE: -0.591 GC content %: 39.968 |
The lncRNAs from GreeNC have been analysed against the following databases: SwissProt, miRBase, Rfam, RepBase (RepeatMasker), NONCODE, and lncRNAdb. This table displays any association with these databases.
| Transcript alias | Database | Version | Hit | Evalue |
|---|---|---|---|---|
| Taestivum_Traes_5AL_D34627B1F.5 | RepBase (RepeatMasker) | 2014-01-31 | EnSpm-12_ZM |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
